Contacts of the helix formed by residues 82 - 111 (chain 2) in PDB entry 2X17
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with SER 82 (chain 2).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302 TYR* 3.2 10.0 + - - -
802 TRP* 3.3 1.9 - - - +
812 GLU* 1.3 79.6 - - - +
832 PRO* 1.4 70.7 - - - +
842 LEU* 3.6 12.1 + - - +
852 LYS* 3.1 27.9 + - - +
862 ALA* 3.0 25.3 + - - +
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Residues in contact with PRO 83 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302 TYR* 3.8 6.7 - - - +
312 PHE* 3.7 22.7 - - + -
342 LEU* 4.2 19.5 - - + -
362 LEU* 4.2 13.7 - - + -
392 PHE* 5.0 0.9 - - + -
822 SER* 1.4 88.7 - - - +
842 LEU* 1.3 61.1 + - - +
862 ALA* 3.3 5.2 + - + +
872 PHE* 3.2 20.8 + - - -
1412 LEU* 3.5 27.0 - - + +
1512 LEU* 4.5 16.2 - - + -
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Residues in contact with LEU 84 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
822 SER* 3.1 11.1 + - - +
832 PRO* 1.3 80.3 - - - +
852 LYS* 1.3 59.2 - - + +
872 PHE* 3.3 3.1 + - - +
882 GLU* 3.0 51.7 + - + +
1382 LEU* 3.8 15.5 - - + +
1412 LEU* 3.8 31.2 - - + +
1422 LYS* 3.7 33.4 - - + +
1452 LYS* 5.1 13.9 - - + -
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Residues in contact with LYS 85 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
802 TRP* 3.7 7.2 - - + -
812 GLU* 4.2 31.0 - - + +
822 SER* 3.1 26.9 + - - +
842 LEU* 1.3 81.1 - - + +
862 ALA* 1.3 58.9 + - - +
872 PHE 3.4 0.2 - - - -
882 GLU* 3.5 24.9 + - + +
892 ALA* 3.0 28.2 + - - +
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Residues in contact with ALA 86 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272 MET* 3.4 19.6 - - + +
302 TYR* 4.0 10.3 - - + -
312 PHE* 3.9 21.8 - - + -
802 TRP* 3.6 26.6 - - + +
822 SER 3.0 12.0 + - - +
832 PRO 3.5 9.6 - - - +
852 LYS* 1.3 78.9 - - - +
872 PHE* 1.3 57.0 - - - +
892 ALA* 3.5 1.4 + - - +
902 ALA* 3.1 19.4 + - - +
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Residues in contact with PHE 87 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
312 PHE* 3.6 24.2 - + - -
392 PHE* 3.7 19.5 - + - -
422 TRP* 4.4 11.2 - + + -
432 MET* 3.6 28.7 - - + -
832 PRO 3.2 20.8 + - - +
842 LEU 3.3 2.2 + - - +
862 ALA* 1.3 73.7 - - - +
882 GLU* 1.3 59.4 + - - +
892 ALA 3.3 0.4 - - - -
902 ALA* 3.5 5.5 - - - +
912 TYR* 2.9 30.0 + - - +
1342 VAL* 3.8 32.6 - - + +
1372 ILE* 3.7 40.4 - - + -
1382 LEU* 3.5 14.6 - - + +
1412 LEU* 3.7 17.9 - - + -
1582 LEU* 5.0 2.2 - - + -
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Residues in contact with GLU 88 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
842 LEU* 3.0 40.1 + - + +
852 LYS* 3.6 35.3 + - + +
862 ALA 3.3 0.2 - - - -
872 PHE* 1.3 77.2 - - - +
892 ALA* 1.3 57.8 + - - +
912 TYR* 4.0 2.4 - - - +
922 GLU* 3.2 29.1 + - - +
1382 LEU* 3.7 23.8 - - + -
1422 LYS* 3.9 16.1 - - - -
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Residues in contact with ALA 89 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232 LEU* 5.2 1.0 - - - +
272 MET* 4.3 5.4 - - + +
802 TRP* 3.4 29.8 - - + +
852 LYS 3.0 13.2 + - - +
862 ALA 3.7 2.9 - - - +
872 PHE 3.3 0.2 - - - -
882 GLU* 1.3 75.7 - - - +
902 ALA* 1.3 60.1 + - - +
922 GLU* 3.8 10.4 + - - +
932 HIS* 3.2 25.1 + - - +
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Residues in contact with ALA 90 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242 TYR* 4.1 15.9 + - + +
272 MET* 3.8 21.3 - - + +
432 MET* 4.8 4.9 - - + -
862 ALA 3.1 15.1 + - - +
872 PHE* 3.5 12.8 - - - +
882 GLU 3.3 0.2 - - - -
892 ALA* 1.3 76.2 - - - +
912 TYR* 1.3 58.4 + - - +
932 HIS* 3.2 6.3 + - - +
942 GLU* 2.8 32.4 + - - +
1342 VAL* 4.0 12.8 - - + -
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Residues in contact with TYR 91 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
872 PHE 2.9 17.5 + - - +
882 GLU 4.0 3.1 - - - +
902 ALA* 1.3 74.0 - - - +
922 GLU* 1.3 65.0 + - - +
942 GLU* 3.4 4.5 + - + +
952 LYS* 3.2 53.1 + - + +
1312 GLU* 3.8 37.5 + - + -
1342 VAL* 3.9 9.8 - - + +
1352 LYS* 3.5 47.3 - - + +
1382 LEU* 3.6 21.3 - - + -
1Y MET* 3.3 26.2 - - + +
65Y ASN* 4.6 4.0 - - - +
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Residues in contact with GLU 92 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
882 GLU 3.2 19.2 + - - +
892 ALA* 3.9 9.5 - - - +
912 TYR* 1.3 76.1 - - - +
932 HIS* 1.3 59.3 + - - +
952 LYS* 3.6 18.4 + - - +
962 PHE* 3.2 22.9 + - - +
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Residues in contact with HIS 93 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192 TYR* 3.6 30.8 - + - -
202 SER* 3.1 31.7 + - - -
232 LEU* 3.5 25.6 - - + +
242 TYR* 4.5 12.6 - + - -
892 ALA 3.2 18.8 + - - +
902 ALA* 3.2 6.7 + - - +
922 GLU* 1.3 76.3 - - - +
942 GLU* 1.3 59.5 + - - +
962 PHE* 3.2 31.7 + + - +
972 ILE* 3.0 34.7 + - + +
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Residues in contact with GLU 94 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202 SER* 5.6 0.3 + - - -
242 TYR* 2.5 31.8 + - - +
502 GLU* 4.0 3.1 - - - +
902 ALA 2.8 14.8 + - - +
912 TYR* 3.7 9.0 - - + +
922 GLU 3.4 0.2 - - - -
932 HIS* 1.3 79.2 - - - +
952 LYS* 1.3 57.5 + - - +
972 ILE* 3.5 6.4 + - - +
982 SER* 2.9 32.4 + - - -
1272 GLN* 2.8 31.1 + - - +
1302 GLU* 3.1 38.1 - - - +
1312 GLU* 4.1 16.0 + - + +
1342 VAL* 4.2 17.3 - - + -
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Residues in contact with LYS 95 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
912 TYR* 3.2 49.3 + - + +
922 GLU* 3.9 16.7 - - - +
932 HIS 3.3 0.2 - - - -
942 GLU* 1.3 75.0 - - - +
962 PHE* 1.3 56.6 + - - +
982 SER* 3.9 2.4 - - - -
992 LYS* 3.0 29.8 + - - +
1312 GLU* 4.1 25.4 - - - +
1Y MET* 5.0 17.6 - - + +
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Residues in contact with PHE 96 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162 ARG* 3.9 35.4 - - + -
192 TYR* 5.9 1.3 - + - -
922 GLU 3.2 14.5 + - - +
932 HIS* 3.2 37.6 + + - +
952 LYS* 1.3 74.7 - - - +
972 ILE* 1.3 69.3 + - + +
992 LYS* 3.6 9.4 + - + +
1002 SER* 3.2 23.3 + - - -
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Residues in contact with ILE 97 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132 GLN* 3.8 15.7 - - - +
162 ARG* 4.1 25.6 - - + +
172 GLU* 4.0 10.3 - - - +
202 SER* 3.4 26.9 - - - +
502 GLU* 5.7 0.9 - - - +
932 HIS* 3.0 32.8 + - + +
942 GLU* 3.8 10.1 - - - +
952 LYS 3.4 0.2 - - - -
962 PHE* 1.3 85.2 - - + +
982 SER* 1.3 57.9 + - - +
1002 SER* 2.7 18.8 + - - -
1012 ILE* 2.9 23.1 + - + +
1272 GLN* 3.5 29.2 - - - +
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Residues in contact with SER 98 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
942 GLU 2.9 15.6 + - - -
952 LYS* 3.9 5.2 - - - -
972 ILE* 1.3 76.6 - - - +
992 LYS* 1.3 57.4 + - - +
1012 ILE* 3.3 9.2 + - - +
1022 TYR* 3.0 51.9 + - - -
1272 GLN* 3.4 27.4 + - - +
1312 GLU* 2.8 27.8 + - - -
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Residues in contact with LYS 99 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
952 LYS 3.0 19.1 + - - +
962 PHE* 3.7 10.5 - - + +
972 ILE 3.2 0.2 - - - -
982 SER* 1.3 76.8 - - - +
1002 SER* 1.3 57.2 + - - +
1022 TYR* 3.2 17.4 + - + +
1032 GLU* 3.1 47.7 + - + +
----------------------------------------------------------
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Residues in contact with SER 100 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132 GLN* 2.9 24.1 + - - +
162 ARG* 3.8 26.4 + - - -
962 PHE* 3.2 15.5 + - - -
972 ILE* 2.7 23.8 + - - -
992 LYS* 1.3 78.0 - - - +
1012 ILE* 1.3 59.6 + - - +
1032 GLU* 3.8 13.7 + - - +
1042 LEU* 3.4 25.6 + - - +
----------------------------------------------------------
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Residues in contact with ILE 101 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132 GLN* 3.6 33.2 - - + +
172 GLU* 4.6 3.1 - - - +
572 PHE* 4.1 13.9 - - + -
972 ILE* 2.9 24.7 + - + +
982 SER* 3.4 10.1 - - - +
992 LYS 3.2 0.2 - - - -
1002 SER* 1.3 75.8 - - - +
1022 TYR* 1.3 67.9 + - + +
1042 LEU* 3.2 6.4 + - + +
1052 ALA* 3.0 20.1 + - - +
1202 LEU* 4.3 12.5 - - + +
1232 PHE* 4.1 15.5 - - + +
1242 ILE* 3.8 37.9 - - + +
1272 GLN* 4.5 10.8 - - + -
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Residues in contact with TYR 102 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
982 SER* 3.0 39.0 + - - -
992 LYS* 3.2 16.8 + - + +
1012 ILE* 1.3 81.2 - - + +
1032 GLU* 1.3 57.9 + - + +
1052 ALA* 3.2 6.7 + - - +
1062 ALA* 2.9 27.4 + - - +
1242 ILE* 4.4 11.0 - - + -
64Y ARG* 3.1 18.4 + - - -
112Y LYS 5.4 3.6 - - - +
113Y ASP* 4.9 2.7 + - - -
114Y TYR* 3.6 51.2 - + + -
115Y SER* 2.6 28.8 + - - -
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Residues in contact with GLU 103 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
992 LYS* 3.1 42.4 + - + +
1002 SER* 4.1 12.7 - - - +
1012 ILE 3.3 0.2 - - - -
1022 TYR* 1.3 75.1 - - + +
1042 LEU* 1.3 59.8 + - - +
1062 ALA* 3.7 8.2 - - + +
1072 LEU* 3.0 28.2 + - - +
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Residues in contact with LEU 104 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62 MET* 4.4 10.1 - - - +
92 ALA* 3.8 36.6 - - + +
102 LEU* 4.1 15.3 - - + -
132 GLN* 3.6 38.8 - - + +
162 ARG* 5.9 0.4 - - - +
572 PHE* 4.4 3.8 - - + -
1002 SER 3.4 14.7 + - - +
1012 ILE* 3.2 10.7 + - + +
1032 GLU* 1.3 76.1 - - - +
1052 ALA* 1.3 59.0 + - - +
1072 LEU* 3.4 6.2 + - + +
1082 ALA* 2.9 28.9 + - - +
1202 LEU* 3.6 27.5 - - + +
----------------------------------------------------------
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Residues in contact with ALA 105 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1012 ILE 3.0 12.5 + - - +
1022 TYR* 3.5 10.1 - - - +
1042 LEU* 1.3 75.2 - - - +
1062 ALA* 1.3 62.2 + - - +
1082 ALA* 3.4 2.8 + - - +
1092 GLU* 3.2 29.5 + - - +
1172 ARG* 3.7 19.0 - - - +
1202 LEU* 3.8 11.8 - - + +
1242 ILE* 4.4 10.3 - - + -
114Y TYR* 3.9 24.9 - - + -
----------------------------------------------------------
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Residues in contact with ALA 106 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1022 TYR 2.9 14.3 + - - +
1032 GLU* 3.7 10.1 - - + +
1042 LEU 3.3 0.2 - - - -
1052 ALA* 1.3 77.7 - - - +
1072 LEU* 1.3 56.4 + - - +
1092 GLU* 3.5 5.2 + - - +
1102 GLU* 3.1 28.2 + - - +
112Y LYS* 6.0 7.6 - - + +
114Y TYR* 3.4 20.1 + - + +
----------------------------------------------------------
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Residues in contact with LEU 107 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52 ARG* 4.3 31.2 - - + +
62 MET* 3.8 19.9 - - + +
92 ALA* 3.9 28.0 - - + -
1032 GLU 3.0 19.2 + - - +
1042 LEU* 3.7 7.6 - - + +
1052 ALA 3.3 0.4 - - - -
1062 ALA* 1.3 74.8 - - - +
1082 ALA* 1.3 60.0 + - - +
1102 GLU* 3.8 18.6 - - - +
1112 GLU* 3.1 38.9 + - + +
----------------------------------------------------------
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Residues in contact with ALA 108 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62 MET* 3.7 16.1 - - + +
1042 LEU 2.9 16.9 + - - +
1052 ALA* 3.6 7.9 - - - +
1062 ALA 3.3 0.2 - - - -
1072 LEU* 1.3 79.4 - - - +
1092 GLU* 1.3 55.9 + - - +
1112 GLU 3.7 0.2 + - - -
1122 LYS* 3.1 4.5 + - - -
1132 ASP* 2.8 36.9 + - - +
1162 THR* 4.4 4.7 - - - -
1172 ARG* 3.8 33.7 - - + +
1202 LEU* 4.5 1.3 - - + -
----------------------------------------------------------
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Residues in contact with GLU 109 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1052 ALA 3.2 16.3 + - - +
1062 ALA* 3.5 5.2 + - - +
1072 LEU 3.3 0.2 - - - -
1082 ALA* 1.3 74.8 - - - +
1102 GLU* 1.3 63.2 - - - +
1122 LYS* 3.4 17.3 + - - +
1172 ARG* 2.8 35.2 + - + +
114Y TYR* 2.9 33.1 + - - -
----------------------------------------------------------
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Residues in contact with GLU 110 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1062 ALA 3.1 18.9 + - - +
1072 LEU* 3.8 21.5 - - - +
1092 GLU* 1.3 79.8 - - - +
1112 GLU* 1.3 61.4 + - + +
1122 LYS* 3.2 5.5 + - - +
----------------------------------------------------------
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Residues in contact with GLU 111 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32 SER* 2.6 33.9 + - - -
52 ARG* 3.7 27.0 - - - +
62 MET* 3.6 23.7 + - + +
1072 LEU* 3.1 23.4 + - + +
1082 ALA 4.3 2.7 - - - +
1092 GLU 3.3 0.2 - - - -
1102 GLU* 1.3 79.3 - - + +
1122 LYS* 1.3 69.2 + - - +
1132 ASP* 3.3 8.6 + - + +
----------------------------------------------------------
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il